These are chat archives for nextflow-io/nextflow

23rd
Nov 2018
Hugues Fontenelle
@huguesfontenelle
Nov 23 2018 09:43

Hello!
ERROR ~ .nextflow/history.lock (No such file or directory)
when trying to run in circle-ci
base image is circleci/openjdk:8-jdk-stretch-node-browsers
invoking nextflow with

chmod 775 ~/analysis
cd ~/repo
nextflow \
-C nextflow.config \
-dockerize \
run main.nf -w ~/analysis

The things I tried to take care of so far are: -dockerize, cd in home folder and -w. Any other tip?

Nilesh Tawari
@nilesh-tawari
Nov 23 2018 09:50
Hi everyone, very basic question, where are the reference files saved if "--saveReference" is used while running workflow. I used nf-core/rnaseq workflow, but couldn't find reference files in "results" directory?
Alexander Peltzer
@apeltzer
Nov 23 2018 09:51
Please ask in the nf-core gitter channel
;-)
Hugues Fontenelle
@huguesfontenelle
Nov 23 2018 09:51
That seems to be a nf-core question @nilesh-tawari , perhaps ask https://gitter.im/nf-core/Lobby
Alexander Peltzer
@apeltzer
Nov 23 2018 09:52
Yes
or our new slack channel https://nf-core-invite.herokuapp.com/
Hugues Fontenelle
@huguesfontenelle
Nov 23 2018 09:52
ooh nice
Nilesh Tawari
@nilesh-tawari
Nov 23 2018 09:53
Sure thanks
Hugues Fontenelle
@huguesfontenelle
Nov 23 2018 11:01

Actually, even this fails on circle-ci

NXF_VER=18.10.1 nextflow -dockerize run hello

error message: ERROR ~ .nextflow/history.lock (No such file or directory)

Hugues Fontenelle
@huguesfontenelle
Nov 23 2018 11:15
@Issakenny how did you solve that?